PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Ciclev10027413m
Common NameCICLE_v10027413mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family GRAS
Protein Properties Length: 549aa    MW: 60593.4 Da    PI: 5.9787
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10027413mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS229.81.3e-701715402374
             GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlar..svselykalppsetseknsseelaalklfsevsPilkf 93 
                      ++lL  cA a+++g+l+++q+lL  l+elasp+gd+++Rlaa+ ++AL ++l++  s+s++  +  p + s+++     ++l  f++ sP++ f
  Ciclev10027413m 171 EQLLNPCAAAITAGNLTRVQHLLYVLHELASPTGDANHRLAAHGLRALTHHLSSlsSSSTTTTSTGPLTFSSTEPRFFQKSLLNFYDKSPWFAF 264
                      689**************************************************9522233333334444444444444444444********** PP

             GRAS  94 shltaNqaIleavege.....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........skeeleetgerLakfAeel 172
                       + +aN+ Il+ ++++     + +Hi+D+++s+G+QWp+Ll+aL+ R+ ++pp +R+T +++ +++               ++  +L  fA+++
  Ciclev10027413m 265 PNNIANSSILQILAQDrhnqvQNLHILDIGVSHGVQWPTLLEALTRRSgGPPPLVRLTIIAPTAENdqneetpfsVGPPGDNYSLQLLGFAKSM 358
                      *************99878666777************************55666*******9977767666665555556688999********* PP

             GRAS 173 gvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerflealey 263
                      ++++++n l ++ l+dl+ ++ ++ p+E+l+V+ +++lh+l    +s+++er+e+L+++ksl+Pk v+++e+++d+   n ++F+++f++ +ey
  Ciclev10027413m 359 NINLQINRLESHPLQDLSAQMVSTYPEETLIVCTQFRLHHLN---HSTPDERTEFLRVLKSLEPKGVILSENNMDCscgNCGDFATGFARRVEY 449
                      *********999*****************************8...77778889*******************9776547888************ PP

             GRAS 264 ysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesg 356
                       + ++ds++a l        k  r+           + ga   e +e + kW +r++ +GF    ++e+a +  ++llrk++ s++ rv+e++g
  Ciclev10027413m 450 LWRFLDSTSAAL--------KAGRA----------KKGGA---EMNEGKDKWCDRMRGVGFVGEVFGEDAIDGGRALLRKYDnSWETRVDERDG 522
                      ********9996........33333..........22333...4677888********************************99********** PP

             GRAS 357 slvlgWkdrpLvsvSaWr 374
                      ++ l Wk++p+ ++S W+
  Ciclev10027413m 523 CIELWWKGQPVSFCSLWK 540
                      *****************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098531.212144519IPR005202Transcription factor GRAS
PfamPF035144.4E-68171540IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 549 aa     Download sequence    Send to blast
MTIIEEPEPN PTADHILDWL EESVSFLPSF LDDPYNANGI DDYQWWNQGQ DMAPEQLIGN  60
TGASSAAAPV NNTEATVNVS TISVRPTDSV VPGPPAPADS SKKRRNADDP RTRSSQSHHQ  120
RKNQGRRISE TEEGNEEGVI VKRSVGNKKN TNKSTGNNGN NGNSKEGRWA EQLLNPCAAA  180
ITAGNLTRVQ HLLYVLHELA SPTGDANHRL AAHGLRALTH HLSSLSSSST TTTSTGPLTF  240
SSTEPRFFQK SLLNFYDKSP WFAFPNNIAN SSILQILAQD RHNQVQNLHI LDIGVSHGVQ  300
WPTLLEALTR RSGGPPPLVR LTIIAPTAEN DQNEETPFSV GPPGDNYSLQ LLGFAKSMNI  360
NLQINRLESH PLQDLSAQMV STYPEETLIV CTQFRLHHLN HSTPDERTEF LRVLKSLEPK  420
GVILSENNMD CSCGNCGDFA TGFARRVEYL WRFLDSTSAA LKAGRAKKGG AEMNEGKDKW  480
CDRMRGVGFV GEVFGEDAID GGRALLRKYD NSWETRVDER DGCIELWWKG QPVSFCSLWK  540
LDVKVEDS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B2e-3016454081473Protein SHORT-ROOT
5b3h_B6e-3116454027419Protein SHORT-ROOT
5b3h_E6e-3116454027419Protein SHORT-ROOT
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in epidermal and cortical root cells. {ECO:0000269|PubMed:15961669}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking. May be a target of DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK) (PubMed:15961669). Is essential for Nod factor-elicited expression of ERN1 (PubMed:23077241). {ECO:0000269|PubMed:15961669, ECO:0000269|PubMed:23077241}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024036396.10.0LOW QUALITY PROTEIN: nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLV4SRY20.0V4SRY2_9ROSI; Uncharacterized protein
STRINGXP_006426656.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM107472834
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-145GRAS family protein
Publications ? help Back to Top
  1. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  2. Tang H, et al.
    An improved genome release (version Mt4.0) for the model legume Medicago truncatula.
    BMC Genomics, 2014. 15: p. 312
    [PMID:24767513]